Gut microbiota modulation via fecal microbiota transplantation mitigates hyperoxaluria and calcium oxalate crystal depositions induced by high oxalate diet/Experiment 4

From BugSigDB


Needs review

Curated date: 2025/04/05

Curator: Dorcas-od

Revision editor(s): Dorcas-od, Anne-mariesharp

Subjects

Location of subjects
China
Host species Species from which microbiome was sampled. Contact us to have more species added.
Rattus norvegicus
Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Oxalate measurement Oxalate measurement,oxalate measurement
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Normal-45day
Group 1 name Corresponds to the case (exposed) group for case-control studies
5%Hyp-45day
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Rats at day 45 after exposure to a 5%Hyp(Hydroxyproline) oxalate precursor-diet that induces hyperoxaluria, evidenced by increased urinary oxalate excretion and renal CaOx(Calcium Oxalate) crystal deposition
Group 0 sample size Number of subjects in the control (unexposed) group
8
Group 1 sample size Number of subjects in the case (exposed) group
8

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
V3-V4
Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
Illumina

Statistical Analysis

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
log transformation
Statistical test
MaAsLin2
Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
0.05
MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
No

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
decreased
Chao1 Abundance-based estimator of species richness
decreased

Signature 1

Needs review

Curated date: 2025/04/05

Curator: Dorcas-od

Revision editor(s): Dorcas-od, Anne-mariesharp

Source: Figure 1h

Description: The differential genera between the Normal group and the HDOx groups at day 45.

Abundance in Group 1: increased abundance in 5%Hyp-45day

NCBI Quality ControlLinks
Candidatus Saccharimonas
Marvinbryantia
Oscillibacter
Shuttleworthella
Streptococcus
Ruminococcaceae_UCG-014Ruminococcaceae_UCG-014
Erysipelotrichaceae_UCG-003Erysipelotrichaceae_UCG-003
Ruminiclostridium
Ruminococcus
Prevotella

Revision editor(s): Dorcas-od, Anne-mariesharp

Signature 2

Needs review

Curated date: 2025/04/05

Curator: Dorcas-od

Revision editor(s): Dorcas-od, Anne-mariesharp

Source: Figure 1h

Description: The differential genera between the Normal group and the HDOx groups at day 45.

Abundance in Group 1: decreased abundance in 5%Hyp-45day

NCBI Quality ControlLinks
Akkermansia
Alloprevotella
Bacteroides
Butyricimonas
Oscillospira
Papillibacter
Parasutterella
Prevotellaceae_UCG-001Prevotellaceae_UCG-001
Clostridium_sensu_ stricto_1Clostridium_sensu_ stricto_1
Acidobacteria bacterium RB41

Revision editor(s): Dorcas-od, Anne-mariesharp